This is trivial C++/OpenCV program to get positional data of sea snails.
It simply calibrates itself using a chessboard pattern and apply an adaptive threshold
to extract darker blobs. Blobs are scored according to their similarity
with the expected blob.
An example can be found on youtube: http://www.youtube.com/watch?v=VdbRuSgqwIU&feature=youtu.be
The rest of the analysis can be done in R.
An example script (./R/script.R) is provided.
To compile the program after cloning:
autoreconf -i
./configure
make
Then, to analyse a collection of images that are in the same directory one can do:
for i in $(ls *.avi); do ./tracker $i > $i.csv; done
for i in $(ls *.csv | grep -v ^filtered-*);do echo $i; ./script.R $i;done
# to make a pdf with everyone
pdftk *.pdf cat output all.pdf
For each video this will create:
- One raw csv
- One "filtered" csv (prefixed
filtered-) - One pdf with the coloured trajectory